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Ambion turbo dna free

Manufactured by Thermo Fisher Scientific
Sourced in United States

Ambion Turbo DNA-free is a lab equipment product designed for the removal of DNA contamination from RNA samples. It utilizes a proprietary enzymatic treatment to effectively degrade any residual DNA, ensuring the purity of the final RNA preparation.

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18 protocols using ambion turbo dna free

1

RNA Extraction and cDNA Synthesis

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For RNA extraction and cDNA synthesis, previously described methodology by Awasthi et al. (2015 (link)) was followed. Total RNA was isolated from A. fumigatus GA-L7 using TRIzol reagent (Invitrogen, Life technologies, Carlsbad, USA). DNase treatment was given to 10 µg of RNA (Ambion® TURBO, DNA-free™, Life technologies). According to manufacturer’s instructions, first strand cDNA synthesis was carried out using the ImProm-II™ Reverse transcription system (Promega, Madison, USA). For cDNA synthesis, random hexamer primers were used (Thermo Scientific, USA) and 1 µg of the DNase treated RNA sample was taken as template.
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2

RNA Extraction and cDNA Synthesis

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RNA was isolated according to manufacturer´s protocol using the RNA nucleospin kit II (Macherey-Nagel), treated with DNase (Ambion Turbo DNA-free; Life Technologies, Carlsbad, California, USA) and cDNA was generated using M-MLV (Life Technologies) enzyme.
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3

Quantitative RT-PCR Gene Expression Analysis

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RNA was extracted using a Qiagen RNeasy mini kit (Qiagen AB, Sweden) and treated with DNase (Ambion Turbo DNA-free, Life Technologies Corp., Sweden). Approximately 100 to 500 ng of DNase-treated RNA was used to generate cDNAs, using M-MLV reverse transcriptase (Life Technologies Corp., Sweden) and a mixture of oligoDt18 with nanomers (IDT technologies Inc., Belgium). qRT-PCR was carried out using KAPA 2G SyberGreen (Kapa Biosystems, USA) and the Applied Biosystems 7900HT platform with the following conditions: 95°C for 3 min, 95°C for 3 sec, and 60°C for 30 sec. The primers are indicated in Table 1.
The expression of the genes was normalized to the expression of β-actin (or to U48 where indicated); relative expression was calculated using ΔΔCt method according to the instructions of the User Bulletin #2 (Applied Biosystems).
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4

Total RNA Isolation and cDNA Synthesis

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Total RNA was isolated from different tissues of C. forskohlii using TRIzol® reagent (Invitrogen, Life Technologies, USA) according to the manufacturer's instruction and quantified using spectrophotometer (NanoDrop 2000c, Thermo Fisher Scientific, USA). Ten microgram of total RNA was treated with DNase (Ambion® TURBO DNA-free™, Life Technologies, USA). First strand cDNA synthesis was carried out using the ImProm-II™ Reverse Transcription System (Promega, USA) according to manufacturer's protocol, with an anchored oligo-dT12 primer (FirstChoice® RLM-RACE Kit, Ambion®, Life Technologies, USA) and 1 μg of DNase-treated RNA as a template.
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5

RNA Isolation and cDNA Synthesis from B. juncea

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RNA isolation from B. juncea seedlings was done using Trizol (Invitrogen, Waltham, MA, United States). It was quantified using a Nanodrop spectrophotometer (Thermo Fisher Scientific, Waltham, MA, United States). Qualitative analysis of RNA was done on 2% agarose gel electrophoresis. The isolated RNA was incubated with DNase (Ambion TURBO DNA free, Life Technologies, Carlsbad, CA, United States) to eliminate any potential DNA impurity. The first-strand of the cDNA was prepared from 1 μg of DNAse-treated RNA using reverse transcriptase (Promega, Madison, WI, United States) with oligo (dt) primer.
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6

RNA Expression Profiling of CfCYP Genes

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For RNA expression profiling of CfCYP93B and CfCYP706C in different tissues, first strand cDNA synthesis was carried out using DNase (Ambion® TURBO DNA-free™, Life Technologies, USA) treated total RNA and oligo dT primers (ImProm-II™ Reverse Transcription System; Promega, USA). cDNA was subjected to PCR using GSPs (gene specific primers) and actin primers (see Table S1 for primer sequences). Actin gene was used as a housekeeping internal control.
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7

Hippocampal Protein and RNA Extraction

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Hippocampi from P1 and P45 wild-type and pallid mice were rapidly dissected, and the two halves frozen separately to be used for protein or total RNA extraction (Ghiani et al., 2010 (link); Lee et al., 2018 (link)). For protein extraction, tissue samples were homogenised in lysis buffer [150 mM Tris-HCl, 0.25% (w/v) sodium deoxycholate, 150 mM NaCl, 1 mM EGTA, 1mM EDTA; 1% (w/v) Triton X-100, 0.1% (w/v) SDS, 1 mM sodium vanadate, 1 mM AEBSF, 10 μg/ml Aprotinin, 10 μg/ml Leupeptin, 10 μg/ml pepstatin, and 4 μM sodium fluoride], and clarified by centrifugation at 14,000 rpm for 15 min. The supernatant was collected, and the total protein concentration was estimated using the ThermoScientific™ Pierce™ BCA (bicinchoninic acid) Protein Assay Kit (Waltham, MA). Total RNA was extracted using the Invitrogen™ TRIzol™ reagent (ThermoFisher; Carlsbad, CA) following the manufacturer’s protocol from P1 wild-type, pallid and sandy, as well as P45 wild-type and pallid hippocampi. Samples were further purified by treatment with Ambion® TURBO DNA-free™ (Life Technologies; Waltham, MA), followed by a second extraction with phenol/chloroform. Sample concentrations and purity were assessed using a ThermoScientific™ NanoDrop™ One Microvolume UV-Vis Spectrophotometer (Canoga Park, CA).
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8

RNA Extraction and qRT-PCR Analysis

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RNA was extracted using the RNA NucleoSpin II kit (Macherey-Nagel) and treated with DNase (Ambion Turbo DNA-free, Life Technologies). 500 ng of RNA was used to generate cDNA using First Strand cDNA Synthesis kit (K1612, Invitrogen by Thermo Fisher Scientific) according to the manufacturer’s instructions. qRT-PCR was performed using PowerUp SYBR Green Master Mix (A25777, Thermo Fisher Scientific) on the CFX96 Touch Real-Time PCR Detection System (Bio-Rad) at the following conditions: 50 °C for 2 min, 95 °C for 2 min followed by 40 cycles of 95 °C for 3 sec and 60 °C for 30 sec, finishing at 65 °C for 5 sec. Expression was normalized to the mean of two internal controls; U48 and B2M and the fold gene expression was calculated using the 2−ΔΔCT-method44 (link). The corresponding primers for each target are specified in Supplementary Table S1.
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9

iPSC-Derived Macrophage Gene Expression

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Freshly harvested iPSC-MΦ were either pelleted and lysed directly or plated at 7 × 105 cells/well in a 12-well in macrophage media and cultured for 6 h in presence or absence of 100 ng/mL LPS, 10 µM zVAD-fmk and/or 3 µM GSK before being lysed in the plate. Cells were lysed using RLT buffer (QIAGEN) supplemented with 10 µL β-ME. RNA extraction was performed using the RNeasy® kit (QIAGEN) according to manufacturer’s protocol. Potential DNA contamination was removed by adding a step of Ambion® TURBO DNA-free® according to manufacturer’s protocol (Life technologies). Reverse transcription was performed using the High capacity RNA-to-cDNA kit (Applied Biosystems™) according to manufacturer’s protocol. qPCR was performed using Brilliant III SYBR® (Agilent) on the Applied Biosystems® StepOnePlus™ Real-Time PCR System. The Following primers were used:
TargetForward primer (5′–3′)Reverse primer (5′–3′)
TATABox proteinGAACCACGGCACTGATTTTCCCCCACCATGTTCTGAATCT
RIPK1TTACATGGAAAAGGCGTGATACAAGGTCTGCGATCTTAATGTGGA
TNFαTGTTGTAGCAAACCCTCAAGCTATCTCTCAGCTCCACGCCA
IL1-βAAAGCTTGGTGATGTCTGGTCGGACATGGAGAACACCACTTG
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10

Cloning and Characterization of Chalcone Synthase Gene

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These protocols have been described earlier (Awasthi et al. 2016a ). Briefly, RNA was isolated from frozen plant samples, using TRIzol ® (Invitrogen, Life Technologies, USA) and quantified using a spectrophotometer (Thermo Scientific, USA). Post DNase (DNA-free™ kit; Ambion ® TURBO DNA-free™, Life Technologies, USA) treatment of RNA, cDNA was synthesized with ImProm-II™ Reverse Transcription System (Promega, USA) using oligo-dT 12 primer (FirstChoice ® RLM-RACE Kit, Ambion ® , Life Technologies, USA). Degenerate primers were used for amplification of the core region (internal fragment) of the gene. This fragment was geleluted (Qiaex II gel extraction kit, Qiagen, Germany) and sequenced. The sequence was used for designing gene Table1 specific primers. First Choice ® RLM-RACE kit (Invitrogen, USA) was used for performing Rapid amplification of cDNA ends (RACE) reactions to clone CHS from D. gotadhora (DbCHS), following manufacturer's instructions. 2 µg of DNase treated RNA, isolated from the leaf tissue of D. gotadhora, served as template for first strand cDNA synthesis. 3′ RACE-PCR was carried out using oligo(dT) primed cDNA and 3′ RACE outer primer along with 3′ RACE-Gene specific primer (GSP). Similarly, 5′ end of the gene was generated using 5′ RACE outer primer and 5′ RACE GSP along with 5′ RACE inner primer. The 5′ and 3′ RACE amplicons were cloned and sequenced.
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